Part 1: Analyzing Gene Sets with TRANSFAC & PROTEOME

• Introduction to TRANSFAC and PROTEOME search interface, standard searches for transcription factors, for diseases, for pathways
• Functional analysis for pathways, GO terms, disease terms, with HumanPSD and TRANSPATH (PROTEOME)
• Analysis of single promoters for putative transcription factor binding sites with TRANSFAC

Part 2: Analyzing Genomic Intervals and Variants with TRANSFAC and geneXplain platform

• Analysis of BED format data (e.g. ChIP-seq) in TRANSFAC
• Variant Analysis (Identification of TFBSs affected by genomic variants) integrated in the geneXplain platform

Part 3: Upstream analysis as integrated promoter & pathway analysis Upstream analysis (integrated promoter–pathway analysis) using TRANSFAC and PROTEOME integrated in the geneXplain platform:

identification of transcription factors

identification of master regulators

• Introduction of the GenomeEnhancer software, automatically generated reports